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MC64: A web platform to test bioinformatics algorithms in a many-core architecture

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Author
Díaz, David
Caballero, J.A.
Hernández, Pilar
Dorado, G.
Gálvez, Sergio
Esteban, F.J.
Publisher
Springer Berlin / Heidelberg
Date
2011
Subject
Analytical methodology
Computational power
Many-core architecture
Resource integration
Third-party tools
Algorithms
User interfaces
Web browsers
Bioinformatics
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Abstract
New analytical methodologies, like the so-called "next-generation sequencing" (NGS), allow the sequencing of full genomes with high speed and reduced price. Yet, such technologies generate huge amounts of data that demand large raw computational power. Many-core technologies can be exploited to overcome the involved bioinformatics bottleneck. Indeed, such hardware is currently in active development. We have developed parallel bioinformatics algorithms for many-core microprocessors containing 64 cores each. Thus, the MC64 web platform allows executing high-performance alignments (Needleman-Wunsch, Smith-Waterman and ClustalW) of long sequences. The MC64 platform can be accessed via web browsers, allowing easy resource integration into third-party tools. Furthermore, the results obtained from the MC64 include time-performance statistics that can be compared with other platforms
URI
http://hdl.handle.net/10396/6801
Fuente
Esteban, F., Díaz, D., Hernández, P., Caballero, J., Dorado, G., Gálvez, S., Rocha, M., et al. (2011). 5th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2011). (M. P. Rocha, J. M. C. Rodríguez, F. Fdez-Riverola, & A. Valencia, Eds.) (Vol. 93, pp. 9-16). Berlin, Heidelberg: Springer Berlin Heidelberg. http://dx.doi.org/10.1007/978-3-642-19914-1
Versión del Editor
http://www.springerlink.com/content/63u2537116715l51/
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